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. Author manuscript; available in PMC: 2011 Feb 15.
Published in final edited form as: Proteins. 2010 Feb 15;78(3):695–704. doi: 10.1002/prot.22598

Table 1.

Clustering analysis of the peptide backbone structures in (a) water solution and (b) TMAO solution. Clusters are listed in decreasing RMSD (in nm) of the average structure for that cluster from a perfectly linear peptide backbone. The RMSD values listed are for reference and are different from the RMSD calculations used to create the clusters, thus explaining similar RMSD values for different clusters. Clusters were made by taking structures every 5ps of the entire 20 ns trajectory, resulting in 4000 conformations.

a. b.
RMSD Probability RMSD Probability


1.3 32% 1.2 40%
1.3 13% 1.1 20%
1.2 7% 1.0 12%
1.1 7% 1.0 14%
1.1 4% 0.6 4%
1.0 9% 0.4 10%
0.9 2%
0.8 20%
0.7 5%